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# .coveragerc to control coverage.py | ||
[run] | ||
branch = True | ||
source = scrnaseq | ||
# omit = bad_file.py | ||
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[paths] | ||
source = | ||
src/ | ||
*/site-packages/ | ||
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[report] | ||
# Regexes for lines to exclude from consideration | ||
exclude_lines = | ||
# Have to re-enable the standard pragma | ||
pragma: no cover | ||
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# Don't complain about missing debug-only code: | ||
def __repr__ | ||
if self\.debug | ||
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# Don't complain if tests don't hit defensive assertion code: | ||
raise AssertionError | ||
raise NotImplementedError | ||
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# Don't complain if non-runnable code isn't run: | ||
if 0: | ||
if __name__ == .__main__.: |
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# This workflow will install Python dependencies, run tests and lint with a single version of Python | ||
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | ||
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name: Publish to PyPI | ||
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on: | ||
push: | ||
tags: "*" | ||
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jobs: | ||
build: | ||
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runs-on: ubuntu-latest | ||
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steps: | ||
- uses: actions/checkout@v2 | ||
- name: Set up Python 3.9 | ||
uses: actions/setup-python@v2 | ||
with: | ||
python-version: 3.9 | ||
- name: Install dependencies | ||
run: | | ||
python -m pip install --upgrade pip | ||
pip install flake8 pytest tox | ||
# - name: Lint with flake8 | ||
# run: | | ||
# # stop the build if there are Python syntax errors or undefined names | ||
# flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics | ||
# # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide | ||
# # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics | ||
- name: Test with tox | ||
run: | | ||
tox | ||
- name: Build docs | ||
run: | | ||
tox -e docs | ||
- run: touch ./docs/_build/html/.nojekyll | ||
- name: GH Pages Deployment | ||
uses: JamesIves/[email protected] | ||
with: | ||
branch: gh-pages # The branch the action should deploy to. | ||
folder: ./docs/_build/html | ||
clean: true # Automatically remove deleted files from the deploy branch | ||
- name: Build Project and Publish | ||
run: | | ||
python -m tox -e clean,build | ||
- name: Publish package | ||
uses: pypa/gh-action-pypi-publish@27b31702a0e7fc50959f5ad993c78deac1bdfc29 | ||
with: | ||
user: __token__ | ||
password: ${{ secrets.PYPI_PASSWORD }} |
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name: Test the library | ||
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on: | ||
push: | ||
branches: [ master ] | ||
pull_request: | ||
branches: [ master ] | ||
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jobs: | ||
build: | ||
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runs-on: ubuntu-latest | ||
strategy: | ||
matrix: | ||
python-version: [ '3.8', '3.9', '3.10', '3.11', '3.12' ] | ||
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name: Python ${{ matrix.python-version }} | ||
steps: | ||
- uses: actions/checkout@v2 | ||
- name: Setup Python | ||
uses: actions/setup-python@v2 | ||
with: | ||
python-version: ${{ matrix.python-version }} | ||
cache: 'pip' | ||
- name: Install dependencies | ||
run: | | ||
python -m pip install --upgrade pip | ||
pip install flake8 pytest tox | ||
# - name: Lint with flake8 | ||
# run: | | ||
# # stop the build if there are Python syntax errors or undefined names | ||
# flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics | ||
# # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide | ||
# # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics | ||
- name: Test with tox | ||
run: | | ||
tox |
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# Temporary and binary files | ||
*~ | ||
*.py[cod] | ||
*.so | ||
*.cfg | ||
!.isort.cfg | ||
!setup.cfg | ||
*.orig | ||
*.log | ||
*.pot | ||
__pycache__/* | ||
.cache/* | ||
.*.swp | ||
*/.ipynb_checkpoints/* | ||
.DS_Store | ||
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# Project files | ||
.ropeproject | ||
.project | ||
.pydevproject | ||
.settings | ||
.idea | ||
.vscode | ||
tags | ||
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# Package files | ||
*.egg | ||
*.eggs/ | ||
.installed.cfg | ||
*.egg-info | ||
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# Unittest and coverage | ||
htmlcov/* | ||
.coverage | ||
.coverage.* | ||
.tox | ||
junit*.xml | ||
coverage.xml | ||
.pytest_cache/ | ||
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# Build and docs folder/files | ||
build/* | ||
dist/* | ||
sdist/* | ||
docs/api/* | ||
docs/_rst/* | ||
docs/_build/* | ||
cover/* | ||
MANIFEST | ||
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# Per-project virtualenvs | ||
.venv*/ | ||
.conda*/ | ||
.python-version |
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# Read the Docs configuration file | ||
# See https://docs.readthedocs.io/en/stable/config-file/v2.html for details | ||
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# Required | ||
version: 2 | ||
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# Build documentation in the docs/ directory with Sphinx | ||
sphinx: | ||
configuration: docs/conf.py | ||
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# Build documentation with MkDocs | ||
#mkdocs: | ||
# configuration: mkdocs.yml | ||
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# Optionally build your docs in additional formats such as PDF | ||
formats: | ||
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build: | ||
os: ubuntu-22.04 | ||
tools: | ||
python: "3.11" | ||
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python: | ||
install: | ||
- requirements: docs/requirements.txt | ||
- {path: ., method: pip} |
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# Contributors | ||
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* Jayaram Kancherla [[email protected]](mailto:[email protected]) |
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# Changelog | ||
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## Version 0.1 (development) | ||
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- Feature A added | ||
- FIX: nasty bug #1729 fixed | ||
- add your changes here! |
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